2.500 Å
X-ray
1996-03-04
| Name: | Gag-Pol polyprotein |
|---|---|
| ID: | POL_HV2RO |
| AC: | P04584 |
| Organism: | Human immunodeficiency virus type 2 subtype A |
| Reign: | Viruses |
| TaxID: | 11720 |
| EC Number: | / |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 41 % |
| B | 59 % |
| B-Factor: | 8.694 |
|---|---|
| Number of residues: | 29 |
| Including | |
| Standard Amino Acids: | 29 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 0 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 1.017 | 745.875 |
| % Hydrophobic | % Polar |
|---|---|
| 47.06 | 52.94 |
| According to VolSite | |

| HET Code: | U03 |
|---|---|
| Formula: | C19H17O4 |
| Molecular weight: | 309.336 g/mol |
| DrugBank ID: | DB08663 |
| Buried Surface Area: | 52.76 % |
| Polar Surface area: | 58.59 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 4 |
| H-Bond Donors: | 0 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 1 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 4 |
| X | Y | Z |
|---|---|---|
| -1.30757 | 18.8158 | 20.1872 |
Image generated by PoseView
Represent the protein/ligand binding mode, centered on the ligand
Dashed lines represents hydrogen bonds and metal interactions
Green residue labels for amino acids with hydrophobic contacts (green lines) to the ligand
| Ligand | Protein | Interaction | |||
|---|---|---|---|---|---|
| Atom | Atom | Residue | Distance (Å) | Angle (°) | Type |
| CD3 | CD2 | LEU- 23 | 4.42 | 0 | Hydrophobic |
| OA6 | OD2 | ASP- 25 | 2.7 | 123.57 | H-Bond (Ligand Donor) |
| OA6 | OD1 | ASP- 25 | 3.46 | 122.86 | H-Bond (Ligand Donor) |
| CB6 | CB | ALA- 28 | 3.87 | 0 | Hydrophobic |
| CD4 | CB | ALA- 28 | 4.28 | 0 | Hydrophobic |
| CB4 | CD1 | ILE- 32 | 4.01 | 0 | Hydrophobic |
| CB4 | CG2 | VAL- 47 | 4.19 | 0 | Hydrophobic |
| CG3 | CD1 | ILE- 50 | 4.07 | 0 | Hydrophobic |
| CB5 | CD1 | ILE- 50 | 3.59 | 0 | Hydrophobic |
| OA2 | N | ILE- 50 | 3.04 | 168.05 | H-Bond (Protein Donor) |
| OA3 | N | ILE- 50 | 3.21 | 131.27 | H-Bond (Protein Donor) |
| CG3 | CG2 | ILE- 82 | 3.32 | 0 | Hydrophobic |
| CB6 | CD1 | ILE- 84 | 3.89 | 0 | Hydrophobic |